miRNA: 3'- -CGCAUCUACCGAUGGCCUCGUAACAU- -5'
miRNA: 3'- -CGCA--UCU-ACCGaUGGCCUCGua-ACAU- -5'
miRNA: 3'- -CGCAUCUacCGa-UGGCCUcGUAACAU- -5'
Results 1 - 3 of 3 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 4354 | 5' | -51.6 | NC_001720.1 | + | 5045 | 1.09 | 0.00145 |
|
Target: 5'- gGCGUAGAUGGCUACCGGAGCAUUGUAa -3' miRNA: 3'- -CGCAUCUACCGAUGGCCUCGUAACAU- -5' |
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| 4354 | 5' | -51.6 | NC_001720.1 | + | 12399 | 0.72 | 0.48447 |
|
Target: 5'- cGCGUgcGGGcUGGCgGCCGGGGCcggUGUGg -3' miRNA: 3'- -CGCA--UCU-ACCGaUGGCCUCGua-ACAU- -5' |
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| 4354 | 5' | -51.6 | NC_001720.1 | + | 23599 | 0.69 | 0.654852 |
|
Target: 5'- aGCGUGGA--GCcgGCCGGAaCGUUGUAg -3' miRNA: 3'- -CGCAUCUacCGa-UGGCCUcGUAACAU- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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